Sample Resequencing Stats
Note: The mutation counts shown below represent unfiltered mutation sets.
| ALE, Flask, Isolate |
Predicted Mutations |
Mean Coverage |
Total Reads |
Percent Mapped |
Mapped Reads |
Average Read Length |
|
A5 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,588,402 |
C→T |
15.3% |
L1032L (CTG→CTA) |
hsdR ← |
endonuclease R |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,588,402 | 0 | C | T | 15.3%
| 191.8
/ 22.0
| 72 | L1032L (CTG→CTA) | hsdR | endonuclease R |
| Reads supporting (aligned to +/- strand): ref base C (30/31); new base T (6/5); total (36/36) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GAGATCGCGCGGGCGATTAATAACTGCCTGCAATGCCGGTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCGTGTCGTAATCACCGTACAGCGATTTTACACTCAC > W3110S.gb/4588339‑4588470
|
gagaTCGCGCGGGCGATTAATAACTGCCTGCAATGCCGGTTGCGCGTTCGGGGAACGTTGCACCAGCGAGt > 1:309341/1‑71 (MQ=255)
gagaTCGCGCGGGCGATTAATAACTGCCTGCAATGCCGGTTGCGCGTTCGGGGAACGTTGCACCAGCGAGt > 1:4008729/1‑71 (MQ=255)
agaTCGCGCGGGCGATTAATAACTGCCTGCAATGCCGGTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTc < 1:4951357/71‑1 (MQ=255)
gaTCGCGCGGGCGATTAATAACTGCCTGCAATGCCGGTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTCa < 1:2587935/71‑1 (MQ=255)
aTCGCGCGGGCGATTAATAACTGCCTGCAATGCCGGTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTc < 1:2530333/69‑1 (MQ=255)
tCGCGCGGGCGATTAATAACTGCCTGCAATGCCGGTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTCa > 1:1111600/1‑69 (MQ=255)
tCGCGCGGGCGATTAATAACTGCCTGCAATGCCGGTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTCa > 1:148136/1‑69 (MQ=255)
gcgcgGGCGATTAATAACTGCCTGCAATGCCGGTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTCAAAg < 1:1346026/70‑1 (MQ=255)
cgcgGGCGATTAATAACTGCCTGCAATGCCGGTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTCAAAGGc < 1:3916547/71‑1 (MQ=255)
gCGATTAATAACTGCCTGCAATGCCGGTTGCGCGTTCGGGGACCGTTGCACCAGCGAGTCAAAGGCTTc > 1:1766984/1‑69 (MQ=255)
gCGATTAATAACTGCCTGCAATGCCGGTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTCAAAGGCTTCGa < 1:2268006/71‑1 (MQ=255)
aTTAATAACTGCCTGCAATGCCGGTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTCAAAGGCTTCGAgg < 1:317862/70‑1 (MQ=255)
aTTAATAACTGCCTGCAATGCCGGTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTCAAAGGCTTCGAgg > 1:837434/1‑70 (MQ=255)
aataaCTGCCTGCAATGCCGGTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTCAAAGGCTTCGa > 1:1330690/1‑65 (MQ=255)
aataaCTGCCTGCAATGCCGGTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAAt > 1:464771/1‑71 (MQ=255)
ataaCTGCCTGCAATGCCGGTTGCGCGTTCGGGGAACGTTGCACTAGCGAGTCAAAgg > 1:1980342/1‑58 (MQ=255)
ataaCTGCCTGCAATGCCGGTTGCGCGTTCGGGGAACGTTGCACTAGCGAGTCAAAgg > 1:664147/1‑58 (MQ=255)
ataaCTGCCTGCAATGCCGGTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTCAAAGGCTTCGAGGaaa < 1:3199109/69‑1 (MQ=255)
taaCTGCCTGCAATGCCGGTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTCaa < 1:3823066/54‑1 (MQ=255)
aCTGCCTGCAATGCCGGTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCt < 1:1566190/70‑1 (MQ=255)
tgcctgcAATGCCGGTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTgcg > 1:2337787/1‑71 (MQ=255)
gcctgcAATGCCGGTTGCGCGTTCGGGGAACGTTGCACCAGCGa > 1:3734576/1‑44 (MQ=255)
gcctgcAATGCCGGTTGCGCGTTCGGGGAACGTTGCACCAGCGa > 1:2366881/1‑44 (MQ=255)
cctgcAATGCCGGTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTgcgg < 1:3562083/70‑1 (MQ=255)
cAATGCCGGTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCgtgt > 1:1450462/1‑71 (MQ=255)
cAATGCCGGTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCgtgt > 1:225311/1‑71 (MQ=255)
cAATGCCGGTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCgtgt > 1:1456319/1‑71 (MQ=255)
aTGCCGGTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTG‑GGCGTGTCGt < 1:3138190/71‑1 (MQ=255)
tGCCGGTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCGTGTCGt < 1:3879234/71‑1 (MQ=255)
gCCGGTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCGTGTCGt > 1:3481759/1‑70 (MQ=255)
gCCGGTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCGTGTCGt > 1:328881/1‑70 (MQ=255)
gCCGGTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCGTGTCGt > 1:4963810/1‑70 (MQ=255)
ccGGTTGCGCGTTCGGTGAACGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCGTGTCGTa < 1:3101021/70‑1 (MQ=255)
ccGGTTGCGCGTTCGGGGAACGTTGCACTAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCgtg > 1:2783308/1‑65 (MQ=255)
ccGGTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAAt > 1:2993377/1‑54 (MQ=255)
ccGGTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCGTGTCGTaa > 1:193041/1‑71 (MQ=255)
ccGGTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCGTGTCGTa < 1:718920/70‑1 (MQ=255)
ccGGTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCGTGTCGTa < 1:4184242/70‑1 (MQ=255)
ccGGTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCGTGTCGTa < 1:202644/70‑1 (MQ=255)
ccGGTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCGTGTCGTa < 1:3431988/70‑1 (MQ=255)
ccGGTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCGTGTCGTa < 1:2364317/70‑1 (MQ=255)
ggTTGCGCGTTCGGGGAACGTTGCACTAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCGTGTCGTAATc < 1:1659172/71‑1 (MQ=255)
ggTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCgtgt < 1:2804200/64‑1 (MQ=255)
ggTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCgtgt < 1:3560865/64‑1 (MQ=255)
ggTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCGTGTCGTAATc < 1:3030764/71‑1 (MQ=255)
ggTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCGTGTCGTAATc < 1:119765/71‑1 (MQ=255)
cgcgTTCGGGGAACGTTGCACCAGCGAGTCAAAGGCTTCGAgg < 1:4358861/43‑1 (MQ=255)
cgTTCGGGGAATGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCGTGTCGTAATCACCGTa > 1:2071341/1‑70 (MQ=255)
cgTTCGGGGAACGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCGTGTCGTAATCACCGTa > 1:2349603/1‑70 (MQ=255)
ttCGGGGAACGTTGCACCAGCGAGTCAAAGGCTTCGAgg < 1:3637620/39‑1 (MQ=255)
tCGGGGAACGTTGCACTAGCGAGTCAAAGGCTTCGAGGAAATcc > 1:3469220/1‑44 (MQ=255)
tCGGGGAACGTTGCACTAGCGAGTCAAAGGCTTCGAGGAAATcc > 1:3297349/1‑44 (MQ=255)
tCGGGGAACGTTGCACTAGCGAGTCAAAGGCTTCGAGGAAATcc > 1:1012320/1‑44 (MQ=255)
tCGGGGAACGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCGTGTCGTAATCACCGTACAGc > 1:2179823/1‑71 (MQ=255)
cGGGGAACGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCGTGTCGTAATc > 1:4113825/1‑60 (MQ=255)
ggggAACGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCGTGTCGTAATCACCGTACAGCGa > 1:3016752/1‑71 (MQ=255)
ggggAACGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCGTGTCGTAATCACCGTACAGCGa > 1:2565122/1‑71 (MQ=255)
gAACGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCGTGTCGTAATCACCGTACAGCGAttt < 1:4221113/71‑1 (MQ=255)
gAACGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCGTGTCGTAATCACCGTACAGCGAttt < 1:3248735/71‑1 (MQ=255)
aaCGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCGTGTCGTAATCACCGTACAGCGAtttt < 1:2010787/71‑1 (MQ=255)
aaCGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCGTGTCGTAATCACCGTACAGCGAtttt < 1:65243/71‑1 (MQ=255)
aCGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCGTGTCGTAATCACCGTACAGCGATTTTa < 1:2484989/71‑1 (MQ=255)
aCGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCGTGTCGTAATCACCGTACAGCGATTTTa < 1:973817/71‑1 (MQ=255)
cGTTGCACTAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCGTGTCGTAATCACCGTACAGCGATTTTac < 1:2910972/71‑1 (MQ=255)
cGTTGCACTAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCGTGTCGTAATCACCGTACAGCGATTTTac < 1:576144/71‑1 (MQ=255)
tGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTg > 1:4603832/1‑35 (MQ=255)
gCACTAGCGAGTCAAAGGCTTCGAGGAAATCCTgc < 1:5076291/35‑1 (MQ=255)
gCACTAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCGTGTCGt < 1:561411/45‑1 (MQ=255)
gCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCGTGTCGTaa > 1:4805564/1‑47 (MQ=255)
gCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCGTGTCGTaa > 1:823795/1‑47 (MQ=255)
gCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCGTGTCGTaa > 1:2045689/1‑47 (MQ=255)
aCCAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCGTGTCGTAATCACCGTACAGCGATTTTACACTcac > 1:1420765/1‑71 (MQ=255)
cAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCGTGTCGTAATCACCGTa < 1:729822/51‑1 (MQ=255)
|
GAGATCGCGCGGGCGATTAATAACTGCCTGCAATGCCGGTTGCGCGTTCGGGGAACGTTGCACCAGCGAGTCAAAGGCTTCGAGGAAATCCTGCGGCGTGTCGTAATCACCGTACAGCGATTTTACACTCAC > W3110S.gb/4588339‑4588470
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
